Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 4 of 205
Found at i:951066 original size:24 final size:24
Alignment explanation
Indices: 951039--951090 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
951029 AATCAAAACC
*
951039 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
951063 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
951087 AAAT
1 AAAT
951091 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:951320 original size:30 final size:30
Alignment explanation
Indices: 951286--951348 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
951276 ACTTAACAAG
*
951286 CAAATACCTCTAAAATAATAACAAAACTAA
1 CAAATACATCTAAAATAATAACAAAACTAA
** * * *
951316 CAAATGTATTTAAAATAATAATAAAATTAA
1 CAAATACATCTAAAATAATAACAAAACTAA
951346 CAA
1 CAA
951349 TAAAATAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACATCTAAAATAATAACAAAACTAA
Found at i:954772 original size:31 final size:30
Alignment explanation
Indices: 954731--954820 Score: 85
Period size: 36 Copynumber: 2.9 Consensus size: 30
954721 TTTACTATTA
*
954731 AATATT-TATAAATTTTAAAATATATTTAT
1 AATATTATATAAATTTTAAAATATATTAAT
*
954760 TATATTAATATAAATATTTTTCAATAATATATTAAT
1 AATATT-ATAT-AA-A-TTTT-AA-AATATATTAAT
*
954796 AATATTATATAAAATTTAAAA-ATAT
1 AATATTATATAAATTTTAAAATATAT
954821 CATTGTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
29 9 0.18
30 2 0.04
31 5 0.10
32 5 0.10
33 2 0.04
34 6 0.12
35 6 0.12
36 15 0.30
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
AATATTATATAAATTTTAAAATATATTAAT
Found at i:954842 original size:55 final size:55
Alignment explanation
Indices: 954783--954893 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
954773 ATATTTTTCA
954783 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
1 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
*
954838 ATAATATATTAATAATATTATATAAAATTTAAAAATATTATTGTTAAAATGTATT
1 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
954893 A
1 A
954894 GTAAAAGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (55 bp):
ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
Found at i:961721 original size:27 final size:27
Alignment explanation
Indices: 961660--961722 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
961650 ATTCTTCTCA
961660 TATTTAA-AATTTAATCCATAACTTTT
1 TATTTAATAATTTAATCCATAACTTTT
*
961686 TATTCTAATAATTTAGTCC-T-ACTCTTT
1 TATT-TAATAATTTAATCCATAACT-TTT
961713 TGATTTAATA
1 T-ATTTAATA
961723 TCATTTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 7 0.22
27 13 0.41
28 12 0.38
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (27 bp):
TATTTAATAATTTAATCCATAACTTTT
Found at i:961866 original size:29 final size:29
Alignment explanation
Indices: 961834--961899 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
961824 ACCAAAAAAA
*
961834 GCCATTTTTTTCAAAATTTACCGAAATTG
1 GCCATTTTTTTCAAAATTTACCGAAATGG
* * ** *
961863 GCCAATTTTTTGATTATTTACCGGAATGG
1 GCCATTTTTTTCAAAATTTACCGAAATGG
961892 GCCATTTT
1 GCCATTTT
961900 CTGCGAAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (29 bp):
GCCATTTTTTTCAAAATTTACCGAAATGG
Found at i:963569 original size:28 final size:26
Alignment explanation
Indices: 963512--963600 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 26
963502 AATTTTTGAG
*
963512 TTTTTTTTAAATTGTTATACTTTTTA-TA
1 TTTTTTTTAAA---TTATAATTTTTACTA
*
963540 TTTTTTTCTAATTTGA-AATTTTTACCTA
1 TTTTTTT-TAAATT-ATAATTTTTA-CTA
*
963568 TTATTTTTTAAATTATAATTTTTATTA
1 TT-TTTTTTAAATTATAATTTTTACTA
963595 TTTTTT
1 TTTTTT
963601 GAAATGTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
26 13 0.25
27 6 0.12
28 24 0.47
29 8 0.16
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTTTTAAATTATAATTTTTACTA
Found at i:963611 original size:25 final size:25
Alignment explanation
Indices: 963566--963616 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 25
963556 AATTTTTACC
963566 TATTATTTTTTAAATTATAAT-TTT
1 TATTATTTTTTAAATTATAATCTTT
963590 TATTATTTTTTGAAATGT-TAATCTTT
1 TATTATTTTTT-AAAT-TATAATCTTT
963616 T
1 T
963617 TTTAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTATTTTTTAAATTATAATCTTT
Found at i:965509 original size:20 final size:20
Alignment explanation
Indices: 965479--965516 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
965469 TTTGTTTATT
965479 TTTTCCAATTATATCATGTGA
1 TTTTCCAATTA-ATCATGTGA
965500 TTTT-CAATTAATCATGT
1 TTTTCCAATTAATCATGT
965517 TTAGTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTCCAATTAATCATGTGA
Found at i:971804 original size:21 final size:21
Alignment explanation
Indices: 971780--971853 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 21
971770 GTTTGATAAA
971780 AAAATAAATTTTTTTATTTAT
1 AAAATAAATTTTTTTATTTAT
*
971801 AAAAATAATTATTTTACTTGTTTTTAT
1 -AAAATAA--ATTTT--TT-TATTTAT
971828 AAAATAAA--TTTTTATTTAT
1 AAAATAAATTTTTTTATTTAT
*
971847 ATAATAA
1 AAAATAA
971854 TATAGATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
19 12 0.27
20 2 0.05
22 9 0.20
24 6 0.14
26 9 0.20
27 6 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (21 bp):
AAAATAAATTTTTTTATTTAT
Found at i:971992 original size:25 final size:26
Alignment explanation
Indices: 971958--972015 Score: 109
Period size: 25 Copynumber: 2.3 Consensus size: 26
971948 CTTTGCACTA
971958 TATCATAAAAACCCGTAGAATAC-TT
1 TATCATAAAAACCCGTAGAATACTTT
971983 TATCATAAAAACCCGTAGAATACTTT
1 TATCATAAAAACCCGTAGAATACTTT
972009 TATCATA
1 TATCATA
972016 TAGAGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 23 0.72
26 9 0.28
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
TATCATAAAAACCCGTAGAATACTTT
Found at i:972771 original size:14 final size:15
Alignment explanation
Indices: 972752--972781 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
972742 TTTTATAATA
972752 AAATCTATTT-TTAT
1 AAATCTATTTGTTAT
972766 AAATCTATTTGTTAT
1 AAATCTATTTGTTAT
972781 A
1 A
972782 TTTCAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATCTATTTGTTAT
Found at i:973261 original size:68 final size:66
Alignment explanation
Indices: 973164--973299 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 66
973154 ATTGTCTTCT
973164 TTAAAACTTTTTTTTTTTTTTTTGCTTTGGGTTTTCTTTTCTATGTTTCCATACCATGGTGACCA
1 TTAAAACTTTTTTTTTTTTTTTTGCTTTGGGTTTTCTTTTCTATGTTTCCATACCATGGTGACCA
973229 C
66 C
973230 TTAAAACTTTTTTTTTTTTTTTTTTGCTTTGGGTTTTCTTTTCTATGTTTCCATACCATGGTGAC
1 TTAAAAC--TTTTTTTTTTTTTTTTGCTTTGGGTTTTCTTTTCTATGTTTCCATACCATGGTGAC
973295 CAC
64 CAC
973298 TT
1 TT
973300 TGTTTGCTCA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 7 0.10
68 61 0.90
ACGTcount: A:0.15, C:0.16, G:0.12, T:0.57
Consensus pattern (66 bp):
TTAAAACTTTTTTTTTTTTTTTTGCTTTGGGTTTTCTTTTCTATGTTTCCATACCATGGTGACCA
C
Found at i:977627 original size:15 final size:15
Alignment explanation
Indices: 977607--977649 Score: 63
Period size: 13 Copynumber: 3.0 Consensus size: 15
977597 AGGCAAGTGT
977607 TAACTTTTCATTCTC
1 TAACTTTTCATTCTC
977622 TAAC--TTCATTCTC
1 TAACTTTTCATTCTC
*
977635 TAACTTTTCAGTCTC
1 TAACTTTTCATTCTC
977650 CAGGTCTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 13 0.52
15 12 0.48
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (15 bp):
TAACTTTTCATTCTC
Found at i:978972 original size:17 final size:17
Alignment explanation
Indices: 978950--978983 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
978940 ATCCACTAAT
*
978950 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
978967 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
978984 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:987256 original size:6 final size:6
Alignment explanation
Indices: 987245--987271 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
987235 ACTAGTGTCT
987245 ATTTTA ATTTTA ATTTTA ATTTTA ATT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATT
987272 AGATAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:990664 original size:33 final size:33
Alignment explanation
Indices: 990622--990685 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
990612 GCAGTTCACT
*
990622 GAACAAGGGGGTGCAATAACATTTGAATCAGGA
1 GAACAAGGGGATGCAATAACATTTGAATCAGGA
990655 GAACAAGGGGATGCAATAACATTTGAATCAG
1 GAACAAGGGGATGCAATAACATTTGAATCAG
990686 AAGTTAGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (33 bp):
GAACAAGGGGATGCAATAACATTTGAATCAGGA
Found at i:991282 original size:18 final size:18
Alignment explanation
Indices: 991259--991294 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
991249 TTACTGCAGC
991259 GGACAACTCGACCCGCGT
1 GGACAACTCGACCCGCGT
*
991277 GGACAACTCGACCTGCGT
1 GGACAACTCGACCCGCGT
991295 AGGGTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (18 bp):
GGACAACTCGACCCGCGT
Found at i:992533 original size:21 final size:21
Alignment explanation
Indices: 992505--992554 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
992495 TAATTGTTAC
992505 AATA-TTAAT-TGTATAAAAA
1 AATATTTAATATGTATAAAAA
*
992524 AATACTTTAATATTTATAAAAA
1 AATA-TTTAATATGTATAAAAA
*
992546 TATATTTAA
1 AATATTTAA
992555 CATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
21 10 0.38
22 12 0.46
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AATATTTAATATGTATAAAAA
Found at i:992561 original size:22 final size:22
Alignment explanation
Indices: 992516--992559 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
992506 ATATTAATTG
*
992516 TATAAAAAAATACTTTAATATT
1 TATAAAAAAATACTTTAACATT
*
992538 TATAAAAATATA-TTTAACATT
1 TATAAAAAAATACTTTAACATT
992559 T
1 T
992560 TAATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
TATAAAAAAATACTTTAACATT
Found at i:996109 original size:22 final size:22
Alignment explanation
Indices: 996084--996125 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
996074 TCTCACATTA
*
996084 GGTTTTTGATTTTTAGGGTTAG
1 GGTTTATGATTTTTAGGGTTAG
996106 GGTTTATGATTTTTAGGGTT
1 GGTTTATGATTTTTAGGGTT
996126 TTAGAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.55
Consensus pattern (22 bp):
GGTTTATGATTTTTAGGGTTAG
Found at i:1001703 original size:3 final size:3
Alignment explanation
Indices: 1001695--1001743 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
1001685 ATAAAGAAGG
*
1001695 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1001743 A
1 A
1001744 GGATTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1001787 original size:5 final size:6
Alignment explanation
Indices: 1001768--1001825 Score: 62
Period size: 6 Copynumber: 9.2 Consensus size: 6
1001758 TTTGGAATTC
* *
1001768 AAATAA AAATAA AAATAA AACATTAC AAATAA AAATAA AAAGAAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAA-TAA AAATAA
*
1001819 ATATAA A
1 AAATAA A
1001826 CTAAATTGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 33 0.75
7 7 0.16
8 4 0.09
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:1002564 original size:32 final size:32
Alignment explanation
Indices: 1002518--1002609 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 32
1002508 CCGAATATAA
*
1002518 TAAATATATATTTTTTATTTTTAAAAATA-TTT
1 TAAA-ATATTTTTTTTATTTTTAAAAATATTTT
*
1002550 TAAAATACTTTTTTTTATTTTT-AAATTATTTT
1 TAAAATA-TTTTTTTTATTTTTAAAAATATTTT
1002582 TAAAATATTTTTTTTAATTTTCTAAAAA
1 TAAAATATTTTTTTT-ATTTT-TAAAAA
1002610 AAATTTTGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
31 16 0.31
32 32 0.62
33 1 0.02
34 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (32 bp):
TAAAATATTTTTTTTATTTTTAAAAATATTTT
Found at i:1002578 original size:11 final size:11
Alignment explanation
Indices: 1002564--1002593 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1002554 ATACTTTTTT
1002564 TTATTTTTAAA
1 TTATTTTTAAA
1002575 TTATTTTTAAA
1 TTATTTTTAAA
*
1002586 ATATTTTT
1 TTATTTTT
1002594 TTTAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTTTTAAA
Found at i:1005616 original size:9 final size:9
Alignment explanation
Indices: 1005602--1005628 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1005592 GGAACATTTA
1005602 TTTTAATAT
1 TTTTAATAT
1005611 TTTTAATAT
1 TTTTAATAT
1005620 TTTTAATAT
1 TTTTAATAT
1005629 ATTATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTAATAT
Found at i:1005961 original size:40 final size:39
Alignment explanation
Indices: 1005904--1005980 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 39
1005894 CATTAGGTAT
1005904 TTTATTAGTTTTCTTTTGTCCAAAAAAATTGAATAGGTTC
1 TTTATTAGTTTTCTTTTGT-CAAAAAAATTGAATAGGTTC
* *
1005944 TTTATTAGGTTTT-TTTTGTCTAAAAAATTGATTAGGT
1 TTTATTA-GTTTTCTTTTGTCAAAAAAATTGAATAGGT
1005981 GGTTGACTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 16 0.47
40 13 0.38
41 5 0.15
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (39 bp):
TTTATTAGTTTTCTTTTGTCAAAAAAATTGAATAGGTTC
Found at i:1005980 original size:39 final size:40
Alignment explanation
Indices: 1005890--1005980 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
1005880 TTGGAAGTAC
*
1005890 AATTCATTAGGTATTTTATTAGTTTTCTTTTGTCCAAAAA
1 AATTGATTAGGTATTTTATTAGTTTTCTTTTGTCCAAAAA
* *
1005930 AATTGAATAGGT-TCTTTATTAGGTTTT-TTTTGT-CTAAAA
1 AATTGATTAGGTAT-TTTATTA-GTTTTCTTTTGTCCAAAAA
1005969 AATTGATTAGGT
1 AATTGATTAGGT
1005981 GGTTGACTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
39 17 0.38
40 23 0.51
41 5 0.11
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (40 bp):
AATTGATTAGGTATTTTATTAGTTTTCTTTTGTCCAAAAA
Found at i:1007890 original size:84 final size:84
Alignment explanation
Indices: 1007788--1007941 Score: 215
Period size: 84 Copynumber: 1.8 Consensus size: 84
1007778 TACAGTACAG
* * * * *
1007788 TTTTACTATATATTAATTTATAGTTTGTGTATTTAT-AAGAGGATTGAATTGAAATTTTTT-TTT
1 TTTTACTATACATTAATTTATAATTTCTCTATTTATGAA-AGGACTGAATTG--ATTTTTTATTT
1007851 -TTTTTTGAGGTTAAAGTGAAA
63 ATTTTTTGAGGTTAAAGTGAAA
1007872 TTTTACTATACATTAATTTATAATTTCTCTATTTATGAAAGGACTGAATTGATTTTTTATTTATT
1 TTTTACTATACATTAATTTATAATTTCTCTATTTATGAAAGGACTGAATTGATTTTTTATTTATT
1007937 TTTTG
66 TTTTG
1007942 GGACCAAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
82 7 0.11
83 3 0.05
84 50 0.81
85 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (84 bp):
TTTTACTATACATTAATTTATAATTTCTCTATTTATGAAAGGACTGAATTGATTTTTTATTTATT
TTTTGAGGTTAAAGTGAAA
Found at i:1012649 original size:11 final size:10
Alignment explanation
Indices: 1012632--1012657 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1012622 TAAGTGAAGG
1012632 GAAAAAAAAA
1 GAAAAAAAAA
1012642 GAAAAAAAAA
1 GAAAAAAAAA
1012652 GAAAAA
1 GAAAAA
1012658 CCCAAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:1019521 original size:10 final size:9
Alignment explanation
Indices: 1019506--1019600 Score: 55
Period size: 10 Copynumber: 9.7 Consensus size: 9
1019496 ATTAAAGTAC
1019506 ATAAAAAGTT
1 ATAAAAA-TT
*
1019516 ATAAAATTT
1 ATAAAAATT
*
1019525 AAAAAAATT
1 ATAAAAATT
*
1019534 ATTAAAAATA
1 A-TAAAAATT
*
1019544 ATAAAAAAGT
1 AT-AAAAATT
*
1019554 ATAAATATT
1 ATAAAAATT
1019563 AGTAAGAAATT
1 A-TAA-AAATT
* *
1019574 CTAAAAATC
1 ATAAAAATT
1019583 ATTAAAACTATT
1 A-TAAAA--ATT
1019595 ATAAAA
1 ATAAAA
1019601 TATTTTAGGA
Statistics
Matches: 64, Mismatches: 14, Indels: 13
0.70 0.15 0.14
Matches are distributed among these distances:
9 21 0.33
10 31 0.48
11 9 0.14
12 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:1025656 original size:56 final size:56
Alignment explanation
Indices: 1025513--1026446 Score: 1745
Period size: 56 Copynumber: 16.8 Consensus size: 56
1025503 TGATAATAAC
* * ** *
1025513 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGA---T--GG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGATCTTAAGG
*
1025565 -TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1025620 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1025676 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1025732 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1025788 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1025844 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1025900 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1025956 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1026012 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1026068 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1026124 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1026180 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1026236 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1026292 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1026348 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
* *
1026404 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1026447 TTACCCAAAT
Statistics
Matches: 867, Mismatches: 9, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
50 7 0.01
51 34 0.04
53 1 0.00
55 2 0.00
56 823 0.95
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (56 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
Found at i:1026562 original size:13 final size:13
Alignment explanation
Indices: 1026541--1026572 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1026531 GCTTGGATCA
*
1026541 TCATCAAATAAAT
1 TCATAAAATAAAT
1026554 TCATAAAATAAAT
1 TCATAAAATAAAT
1026567 TCATAA
1 TCATAA
1026573 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1026818 original size:30 final size:30
Alignment explanation
Indices: 1026784--1026841 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1026774 CCTCGACTCT
**
1026784 AACTTTTTGAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1026814 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1026842 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1033993 original size:9 final size:9
Alignment explanation
Indices: 1033979--1034030 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
1033969 TTTGGTTAAA
1033979 AATTACCCG
1 AATTACCCG
1033988 AATTACCCG
1 AATTACCCG
1033997 AATTACCCG
1 AATTACCCG
*
1034006 AATTAACCG
1 AATTACCCG
*
1034015 AATTAACCG
1 AATTACCCG
1034024 AATTACC
1 AATTACC
1034031 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:1037943 original size:3 final size:3
Alignment explanation
Indices: 1037937--1037964 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1037927 TCATTTTAGT
1037937 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1037965 AGGGTTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1041734 original size:109 final size:108
Alignment explanation
Indices: 1041570--1041782 Score: 329
Period size: 109 Copynumber: 1.9 Consensus size: 108
1041560 GCACCAGAAC
*
1041570 ACGAAAAAAGTAAAAAAAAAAAATTTTTTGGTGGTGGCCTGCTAATGGCCGGCACCACCTTTTTT
1 ACGAAAAAAGTAAAAAAAAAAAA---TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTT
* *
1041635 GAAGAATTTTTTTTGTACTTTTTTCTTGTCAATAGCTGGTATCAGTAT
63 GAAG-ATTTTTTTT-TACTTTTTTCGTGTCAATAGCAGGTATCAGTAT
* *
1041683 ACGAAAAAAGTAAAAAAAAAAAA-TTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTTTTGGA
1 ACGAAAAAAGTAAAAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGAA
1041747 GATTTTTTTTTACTTTTTTCGTGTCAATAGCAGGTA
66 GATTTTTTTTTACTTTTTTCGTGTCAATAGCAGGTA
1041783 AATTTGATCA
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
107 24 0.25
108 9 0.09
109 39 0.41
113 23 0.24
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (108 bp):
ACGAAAAAAGTAAAAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGAA
GATTTTTTTTTACTTTTTTCGTGTCAATAGCAGGTATCAGTAT
Found at i:1043624 original size:61 final size:61
Alignment explanation
Indices: 1043495--1043627 Score: 160
Period size: 61 Copynumber: 2.2 Consensus size: 61
1043485 ATGATCATTT
* * * * * *
1043495 TTAAAATTTTTAGAGTTAGGAGTAAATTGACAAAATTTGTAAACATTGAGAGATAAATTTA
1 TTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAAACTTA
* * *
1043556 TTAAATTTTTTAGAATTAGAACTAAAATGACAAATTTTGTGAACATTGA-AGACTAAACTTG
1 TTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGA-TAAACTTA
*
1043617 TTGAATTTTTT
1 TTAAATTTTTT
1043628 TATATTTAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
60 3 0.05
61 58 0.95
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (61 bp):
TTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAAACTTA
Found at i:1056506 original size:46 final size:45
Alignment explanation
Indices: 1056439--1056682 Score: 303
Period size: 46 Copynumber: 5.6 Consensus size: 45
1056429 TTTGAGTACT
*
1056439 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
1056485 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
1056521 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
1056567 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
1056613 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
1056658 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
1056683 ATCATATGTA
Statistics
Matches: 176, Mismatches: 12, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
36 28 0.16
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 15 0.09
44 3 0.02
45 19 0.11
46 101 0.57
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:1056521 original size:36 final size:36
Alignment explanation
Indices: 1056475--1056547 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
1056465 GGTAGCATTA
1056475 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
1056511 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1056547 G
1 G
1056548 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:1056533 original size:82 final size:85
Alignment explanation
Indices: 1056439--1056682 Score: 320
Period size: 82 Copynumber: 2.8 Consensus size: 85
1056429 TTTGAGTACT
*
1056439 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
1056504 GATAAGTG-C-TA-TA-CTTA
65 GATAAGTGCCTTACTACCTTA
* *
1056521 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1056586 GATAAGTGGTAGCCTTAGCTACTCTTA
65 GATAA---GT-GCCTTA-CTAC-CTTA
* * *
1056613 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
1056676 ATAAGTG
66 ATAAGTG
1056683 ATCATATGTA
Statistics
Matches: 143, Mismatches: 8, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
82 65 0.45
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 4 0.03
91 20 0.14
92 34 0.24
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (85 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCCTTACTACCTTA
Found at i:1059217 original size:9 final size:9
Alignment explanation
Indices: 1059203--1059231 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
1059193 TTAAAATACA
1059203 TTTTTAATT
1 TTTTTAATT
1059212 TTTTTAATT
1 TTTTTAATT
1059221 TTTTTAATT
1 TTTTTAATT
1059230 TT
1 TT
1059232 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTAATT
Found at i:1059223 original size:48 final size:48
Alignment explanation
Indices: 1059165--1059264 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
1059155 ATAATAAATA
1059165 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACA-TTTTTAATT
1 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACATTTTTTAATT
* *
1059212 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATATATTTTTTTAATT
1 TTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACA-TTTTTTAATT
1059262 TTT
1 TTT
1059265 AAAATAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 5 0.10
48 31 0.65
50 12 0.25
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (48 bp):
TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACATTTTTTAATT
Found at i:1059284 original size:22 final size:21
Alignment explanation
Indices: 1059236--1059284 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
1059226 AATTTTAAAA
* *
1059236 TATTTTTAAAATATATTTTTT
1 TATTTTTAAAATAAATTTTTG
1059257 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
1059280 TATTT
1 TATTT
1059285 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:1065725 original size:8 final size:8
Alignment explanation
Indices: 1065688--1065716 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1065678 TTAAGTAATC
1065688 ATTATTAT
1 ATTATTAT
1065696 ATTATTAT
1 ATTATTAT
1065704 ATTATTAT
1 ATTATTAT
1065712 ATTAT
1 ATTAT
1065717 ATTAGTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTATTAT
Found at i:1065797 original size:16 final size:16
Alignment explanation
Indices: 1065776--1065808 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1065766 ATAGAAAATG
1065776 GAATAGAAAAAGAACA
1 GAATAGAAAAAGAACA
*
1065792 GAATAGAAAACGAACA
1 GAATAGAAAAAGAACA
1065808 G
1 G
1065809 GAGAGAAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.09, G:0.21, T:0.06
Consensus pattern (16 bp):
GAATAGAAAAAGAACA
Found at i:1087147 original size:32 final size:32
Alignment explanation
Indices: 1087110--1087173 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1087100 CATTTTGCAT
1087110 TCCTGCATTGGAAAAAATTGACCAAGATAACA
1 TCCTGCATTGGAAAAAATTGACCAAGATAACA
1087142 TCCTGCATTGGAAAAAATTGACCAAGATAACA
1 TCCTGCATTGGAAAAAATTGACCAAGATAACA
1087174 ATGTTATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.22
Consensus pattern (32 bp):
TCCTGCATTGGAAAAAATTGACCAAGATAACA
Found at i:1087599 original size:17 final size:17
Alignment explanation
Indices: 1087577--1087612 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1087567 CCTTTTGCTG
1087577 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
1087594 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
1087611 TA
1 TA
1087613 TATTAGGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TAATTTGAAATATGAGT
Found at i:1088886 original size:91 final size:91
Alignment explanation
Indices: 1088609--1088867 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
1088599 TTAAATGTAT
1088609 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1088674 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
1088700 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1088765 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
1088791 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1088856 GAAAATTTATTA
66 GAAAATTTATTA
1088868 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:1089032 original size:18 final size:18
Alignment explanation
Indices: 1089004--1089052 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
1088994 ATTATTAAGA
1089004 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
1089021 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
1089037 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
1089053 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:1089038 original size:16 final size:16
Alignment explanation
Indices: 1089004--1089058 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
1088994 ATTATTAAGA
1089004 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
1089021 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
1089037 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
1089051 ATGTTTAA
1 AT-TTTAA
1089059 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:1089295 original size:16 final size:16
Alignment explanation
Indices: 1089274--1089309 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1089264 GATTAGCTAT
1089274 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1089290 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1089306 TACA
1 TACA
1089310 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:1094346 original size:13 final size:13
Alignment explanation
Indices: 1094295--1094336 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
1094285 AAGTCTTTAG
*
1094295 TTTTTTATTTCCT
1 TTTTTTATTTCTT
*
1094308 TTTATTATTTACTT
1 TTTTTTATTT-CTT
1094322 TTTTTTATTT-TT
1 TTTTTTATTTCTT
1094334 TTT
1 TTT
1094337 ATTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.20
13 9 0.36
14 11 0.44
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTATTTCTT
Found at i:1094347 original size:10 final size:9
Alignment explanation
Indices: 1094315--1094345 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
1094305 CCTTTTATTA
1094315 TTTACTTTTT
1 TTTA-TTTTT
1094325 TTTATTTTT
1 TTTATTTTT
1094334 TTTATTTTT
1 TTTATTTTT
1094343 TTT
1 TTT
1094346 TAGATTGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTATTTTT
Found at i:1094382 original size:18 final size:16
Alignment explanation
Indices: 1094361--1094400 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
1094351 TGGCGAATCA
*
1094361 TTTTATTTTATTTTTGT
1 TTTTATTTTA-ATTTGT
1094378 CTTTTATTTTAATTTGT
1 -TTTTATTTTAATTTGT
1094395 TTTTAT
1 TTTTAT
1094401 GAAGGTACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 5 0.24
18 10 0.48
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTTATTTTAATTTGT
Found at i:1107635 original size:5 final size:5
Alignment explanation
Indices: 1107616--1107703 Score: 61
Period size: 5 Copynumber: 16.2 Consensus size: 5
1107606 AGCAGCCCCT
* *
1107616 TTTTA CTTTA CTTTTA TTTTA TTTTA TATTTA TTATA TTTATA TTTATA
1 TTTTA TTTTA -TTTTA TTTTA TTTTA T-TTTA TTTTA TTT-TA TTT-TA
* *
1107665 TTTATA TTTTCTAA TTTT- TCTAA TTTTA TTTTA TTTTA T
1 TTT-TA -TTT-T-A TTTTA TTTTA TTTTA TTTTA TTTTA T
1107704 AAAAATGGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
4 2 0.03
5 34 0.50
6 24 0.35
7 7 0.10
8 1 0.01
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:1107636 original size:11 final size:10
Alignment explanation
Indices: 1107616--1107703 Score: 61
Period size: 11 Copynumber: 8.1 Consensus size: 10
1107606 AGCAGCCCCT
*
1107616 TTTTACTTTA
1 TTTTATTTTA
1107626 CTTTTATTTTA
1 -TTTTATTTTA
1107637 TTTTATATTTA
1 TTTTAT-TTTA
*
1107648 TTATATTTATA
1 TTTTATTT-TA
1107659 TTTATATTTATA
1 TTT-TATTT-TA
1107671 TTTTCTAATTTT-
1 -TTT-T-ATTTTA
* *
1107683 TCTAATTTTA
1 TTTTATTTTA
1107693 TTTTATTTTA
1 TTTTATTTTA
1107703 T
1 T
1107704 AAAAATGGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
9 5 0.08
10 17 0.27
11 24 0.38
12 8 0.13
13 5 0.08
14 4 0.06
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:1107647 original size:6 final size:6
Alignment explanation
Indices: 1107628--1107673 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
1107618 TTACTTTACT
1107628 TTTAT- TTTAT- TTTATA -TT-TA -TTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1107671 TTT
1 TTT
1107674 TCTAATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.11
5 14 0.37
6 20 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTATA
Found at i:1107654 original size:21 final size:21
Alignment explanation
Indices: 1107629--1107669 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1107619 TACTTTACTT
1107629 TTAT-TTTAT-TTTATATTTA
1 TTATATTTATATTTATATTTA
1107648 TTATATTTATATTTATATTTA
1 TTATATTTATATTTATATTTA
1107669 T
1 T
1107670 ATTTTCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATATTTATATTTATATTTA
Found at i:1107660 original size:27 final size:29
Alignment explanation
Indices: 1107630--1107703 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 29
1107620 ACTTTACTTT
1107630 TATTTTATTTTATATTTAT-T-ATATTTA
1 TATTTTATTTTATATTTATCTAATATTTA
* *
1107657 TA-TTTATATTTATATTT-TCTAATTTTTC
1 TATTTTAT-TTTATATTTATCTAATATTTA
1107685 TAATTTTATTTTAT-TTTAT
1 T-ATTTTATTTTATATTTAT
1107704 AAAAATGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 6 0.15
27 12 0.31
28 9 0.23
29 7 0.18
30 5 0.13
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (29 bp):
TATTTTATTTTATATTTATCTAATATTTA
Found at i:1107759 original size:18 final size:20
Alignment explanation
Indices: 1107717--1107753 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1107707 AATGGATTTT
1107717 TTTATTTTCATAATTTTATG
1 TTTATTTTCATAATTTTATG
1107737 TTTATTTT-AT-ATTTTAT
1 TTTATTTTCATAATTTTAT
1107754 TATTATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTATTTTCATAATTTTATG
Found at i:1107790 original size:21 final size:22
Alignment explanation
Indices: 1107765--1107811 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1107755 ATTATAACTT
*
1107765 TTAAATATA-AAATATT-AAAAA
1 TTAAAAATACAAAT-TTAAAAAA
1107786 TTAAAAATACAAATTTAAAAAA
1 TTAAAAATACAAATTTAAAAAA
1107808 TTAA
1 TTAA
1107812 TTTGAATGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAAATACAAATTTAAAAAA
Found at i:1108504 original size:45 final size:46
Alignment explanation
Indices: 1108433--1108692 Score: 195
Period size: 46 Copynumber: 5.6 Consensus size: 46
1108423 TACGTATGAT
*
1108433 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1108476 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * * *
1108522 CACTTATCACTTTATCACCACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTAC
1 CACTTATCAC----T------TTGTCACTTGATCA-GATAAG-T--G--TAGCTAAAGCTAC
*
1108584 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--A---A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
1108620 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGTTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
1108666 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
1108693 AGTACTCAAA
Statistics
Matches: 174, Mismatches: 14, Indels: 55
0.72 0.06 0.23
Matches are distributed among these distances:
36 28 0.16
37 1 0.01
38 2 0.01
39 1 0.01
40 2 0.01
42 2 0.01
43 11 0.06
44 6 0.03
45 22 0.13
46 41 0.24
50 1 0.01
51 4 0.02
52 11 0.06
56 12 0.07
57 5 0.03
58 2 0.01
62 23 0.13
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:1108573 original size:62 final size:63
Alignment explanation
Indices: 1108474--1108596 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 63
1108464 TAGCTAGGCT
*
1108474 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
1 ACCACTTATCACTTTGTCAC-TGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATC
1108538 ACCACTTATCAC-TTGTTCAC-GATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTT
1 ACCACTTATCACTTTG-TCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTT
1108597 GTCTCTTGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
62 38 0.67
63 3 0.05
64 16 0.28
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (63 bp):
ACCACTTATCACTTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATC
Found at i:1108624 original size:36 final size:36
Alignment explanation
Indices: 1108584--1108654 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1108574 CTAAAGCTAC
*
1108584 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAA
*
1108620 CACTTATCACTTTTTCACTTGATCAGATAAGTGTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTA
1108655 GTTAAAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAA
Found at i:1108675 original size:82 final size:80
Alignment explanation
Indices: 1108540--1108692 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 80
1108530 ACTTTATCAC
*
1108540 CACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTG
1 CACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
1108605 ATCAGATAAGTGTAA
66 ATCAGATAAGTGTAA
* * *
1108620 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTGTTCAC--GATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1108685 TGATCAGA
64 TGATCAGA
1108693 AGTACTCAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
80 17 0.25
82 50 0.75
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (80 bp):
CACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
ATCAGATAAGTGTAA
Found at i:1110864 original size:15 final size:15
Alignment explanation
Indices: 1110839--1110877 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1110829 TTGATCAACT
* *
1110839 TTAACTTTTTTTCTCA
1 TTAA-TTTTTTTATAA
1110855 TTAATTTTTTTATAA
1 TTAATTTTTTTATAA
1110870 TTAATTTT
1 TTAATTTT
1110878 AGTATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTTTTATAA
Found at i:1118101 original size:20 final size:21
Alignment explanation
Indices: 1118069--1118118 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
1118059 ATGTTTTTCT
1118069 AATAT-ATCTGAAAATATTAA
1 AATATCATCTGAAAATATTAA
1118089 AATATCATC-GAAAATATTAA
1 AATATCATCTGAAAATATTAA
1118109 AATATCATCT
1 AATATCATCT
1118119 ATATATACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (21 bp):
AATATCATCTGAAAATATTAA
Found at i:1131554 original size:42 final size:42
Alignment explanation
Indices: 1131495--1131578 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
1131485 CGCCCAATAG
* *
1131495 TTTGGGCTTTGACTTTGTTGGATA-TCATTCCCTTACCATTTA
1 TTTGGGCTTTGACTTTGTTAGATACCCATTCCCTTA-CATTTA
1131537 TTTGGGCTTTGACTTTGTTAGATAGCCCATTCCCTTACATTT
1 TTTGGGCTTTGACTTTGTTAGATA-CCCATTCCCTTACATTT
1131579 CTTTTTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 23 0.61
43 5 0.13
44 10 0.26
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTGGGCTTTGACTTTGTTAGATACCCATTCCCTTACATTTA
Found at i:1132496 original size:27 final size:26
Alignment explanation
Indices: 1132426--1132498 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
1132416 AAATTATTTT
* *
1132426 ATAAATATAATTTTAAAAATAAAATAT
1 ATAAAAATAATTTT-AAAATAAAATAA
* **
1132453 TTAAAAGATAAAGTTAAAATAAAATAAA
1 ATAAAA-ATAATTTTAAAATAAAAT-AA
1132481 ATAAAAATAATTTTAAAA
1 ATAAAAATAATTTTAAAA
1132499 AATTCACACT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 24 0.67
28 12 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAAAAATAATTTTAAAATAAAATAA
Found at i:1133434 original size:20 final size:19
Alignment explanation
Indices: 1133395--1133435 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1133385 CAANAATAGT
* *
1133395 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
1133414 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
1133434 TT
1 TT
1133436 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:1133538 original size:27 final size:26
Alignment explanation
Indices: 1133497--1133579 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
1133487 GCCATATTTT
* *
1133497 AATCCTTTGGTACCATTGGAGCCGCC
1 AATCCTTTGGCACCATTGGTGCCGCC
*
1133523 AATCACTTTGGCACCATTGGTGCCACC
1 AATC-CTTTGGCACCATTGGTGCCGCC
*
1133550 AATCTCTTTGGCACCTTTGGTGCCGCC
1 AATC-CTTTGGCACCATTGGTGCCGCC
1133577 AAT
1 AAT
1133580 GTGATTGGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
26 4 0.08
27 46 0.92
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.29
Consensus pattern (26 bp):
AATCCTTTGGCACCATTGGTGCCGCC
Found at i:1133587 original size:27 final size:27
Alignment explanation
Indices: 1133503--1133588 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
1133493 TTTTAATCCT
* * * * *
1133503 TTGGTACCATTGGAGCCGCCAATCACT
1 TTGGCACCATTGGTGCCACCAATCTCA
*
1133530 TTGGCACCATTGGTGCCACCAATCTCT
1 TTGGCACCATTGGTGCCACCAATCTCA
* * * *
1133557 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCACCAATCTCA
1133584 TTGGC
1 TTGGC
1133589 CTGATCAGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.29
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCACCAATCTCA
Found at i:1133687 original size:24 final size:25
Alignment explanation
Indices: 1133655--1133704 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
1133645 TTTCGTAAAT
1133655 AATAAAAAAAG-TAATATTTTGGTA
1 AATAAAAAAAGTTAATATTTTGGTA
1133679 AATAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAG-T-TAATATTTTGGT
1133705 TAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.48
27 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (25 bp):
AATAAAAAAAGTTAATATTTTGGTA
Found at i:1135552 original size:17 final size:17
Alignment explanation
Indices: 1135530--1135563 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1135520 AGACAACAAT
*
1135530 AAAAAGACAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
1135547 AAAAAGAAAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
1135564 GAGCATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGA
Found at i:1143153 original size:17 final size:17
Alignment explanation
Indices: 1143133--1143194 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
1143123 TTCAATTAAT
1143133 TAATTAATTAATTAAAA
1 TAATTAATTAATTAAAA
1143150 TAA-TAATTTTAA-TAAAA
1 TAATTAA--TTAATTAAAA
*
1143167 AAATTAATT-ATTATAAA
1 TAATTAATTAATTA-AAA
1143184 T-ATCTAATTAA
1 TAAT-TAATTAA
1143195 ATACTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
15 1 0.03
16 9 0.25
17 18 0.50
18 8 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATTAATTAATTAAAA
Found at i:1143174 original size:18 final size:20
Alignment explanation
Indices: 1143130--1143179 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
1143120 AGTTTCAATT
*
1143130 AATTAATTAATTAATTAAAAT
1 AATTAATT-ATTAATTAAAAA
1143151 AA-TAATT-TTAA-TAAAAA
1 AATTAATTATTAATTAAAAA
1143168 AATTAATTATTA
1 AATTAATTATTA
1143180 TAAATATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 3 0.12
20 5 0.19
21 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATTATTAATTAAAAA
Found at i:1144172 original size:18 final size:18
Alignment explanation
Indices: 1144151--1144191 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1144141 AAAAAGAGTT
1144151 ATTAATTTAAAATT-TTTA
1 ATTAA-TTAAAATTATTTA
*
1144169 ATTAATTAAATTTATTTA
1 ATTAATTAAAATTATTTA
1144187 ATTAA
1 ATTAA
1144192 AAATCTATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTAATTAAAATTATTTA
Found at i:1154046 original size:19 final size:19
Alignment explanation
Indices: 1154024--1154060 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1154014 AAATATTTTG
1154024 TACAAAAAAATTTCATGCT
1 TACAAAAAAATTTCATGCT
1154043 TACAAAAAAATTTCATGC
1 TACAAAAAAATTTCATGC
1154061 AGGGGTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (19 bp):
TACAAAAAAATTTCATGCT
Found at i:1171158 original size:21 final size:21
Alignment explanation
Indices: 1171134--1171175 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1171124 TCAATTTTGT
1171134 AATTAAAGAAAAATTAAAACA
1 AATTAAAGAAAAATTAAAACA
**
1171155 AATTAAAGTGAAATTAAAACA
1 AATTAAAGAAAAATTAAAACA
1171176 CTTTAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AATTAAAGAAAAATTAAAACA
Found at i:1175069 original size:31 final size:32
Alignment explanation
Indices: 1175013--1175075 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1175003 AAATTACAAG
1175013 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1175045 AGTAATTGAATCCTAAT-AAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1175076 TTATCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:1180655 original size:31 final size:32
Alignment explanation
Indices: 1180599--1180661 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1180589 AAATTACAAG
1180599 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1180631 AGTAATTGAATCCTAAT-AAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1180662 TTATCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:1185647 original size:31 final size:32
Alignment explanation
Indices: 1185588--1185652 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
1185578 GGCAAATTAC
1185588 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1185620 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1185651 AA
1 AA
1185653 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:1193446 original size:3 final size:3
Alignment explanation
Indices: 1193438--1193473 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
1193428 GTAAGCAGAC
1193438 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1193474 CCCAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1193711 original size:87 final size:87
Alignment explanation
Indices: 1193591--1193765 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
1193581 CTCCAAGATT
1193591 AGAAAACAATTGGATTGCAAGCACAGTTAAAAAAAAAAAAAAAGAATCGAGGCTTAAAATTAGAA
1 AGAAAACAATTGGATTGCAAGCACAGTTAAAAAAAAAAAAAAAGAATCGAGGCTTAAAATTAGAA
1193656 AGAAAGATGAAAATTTTTCCAA
66 AGAAAGATGAAAATTTTTCCAA
*
1193678 AGAAAACAATTGGATTGCAAGCACAGTTAAAAAAAAAAAAAAAGAATCGAGGCTTAAAATTAGTA
1 AGAAAACAATTGGATTGCAAGCACAGTTAAAAAAAAAAAAAAAGAATCGAGGCTTAAAATTAGAA
1193743 AGAAAGATGAAAATTTTTCCAA
66 AGAAAGATGAAAATTTTTCCAA
1193765 A
1 A
1193766 ATTTTAATCA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (87 bp):
AGAAAACAATTGGATTGCAAGCACAGTTAAAAAAAAAAAAAAAGAATCGAGGCTTAAAATTAGAA
AGAAAGATGAAAATTTTTCCAA
Found at i:1203191 original size:10 final size:10
Alignment explanation
Indices: 1203177--1203211 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1203167 ATTGAACTGG
1203177 ATTTTTTTAA
1 ATTTTTTTAA
*
1203187 CTTTTTTTAA
1 ATTTTTTTAA
*
1203197 TTTTTTTTAA
1 ATTTTTTTAA
1203207 ATTTT
1 ATTTT
1203212 CAATAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:1217831 original size:19 final size:18
Alignment explanation
Indices: 1217798--1217833 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1217788 TAATATTCTG
*
1217798 TTAAAAAAAACAATAAAT
1 TTAAAAAAAAAAATAAAT
1217816 TTAAAAATAAAAAATAAA
1 TTAAAAA-AAAAAATAAA
1217834 AAATGGGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
TTAAAAAAAAAAATAAAT
Found at i:1234533 original size:26 final size:26
Alignment explanation
Indices: 1234504--1234576 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
1234494 CCCAATATAT
*
1234504 GGCTCTTCGTGAGCTTTCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* **
1234530 GGCTCTTTGTGAGCTTCCCGATTAGT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* *
1234556 GGCTCTCCG-AAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
1234577 ATGGCTCGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 11 0.28
26 29 0.73
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.33
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:1234689 original size:24 final size:25
Alignment explanation
Indices: 1234662--1234724 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
1234652 GGCTCGCATG
*
1234662 AGCTTCCCGATTAT-GGCTCTA-ATA
1 AGCTTTCCGATTATAGGC-CTAGATA
1234686 AGCTTTCCG-TTATACGGCCTAGATA
1 AGCTTTCCGATTATA-GGCCTAGATA
1234711 AGCTTTCC-ATTATA
1 AGCTTTCCGATTATA
1234725 TGGCTCACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 4 0.12
24 11 0.32
25 19 0.56
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (25 bp):
AGCTTTCCGATTATAGGCCTAGATA
Found at i:1234739 original size:25 final size:26
Alignment explanation
Indices: 1234673--1234740 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
1234663 GCTTCCCGAT
*
1234673 TATGGCTCTA-ATAAGCTTTCCGTTA
1 TATGGCTCTACATAAGCTTTCCATTA
* *
1234698 TACGGC-CTAGATAAGCTTTCCATTA
1 TATGGCTCTACATAAGCTTTCCATTA
*
1234723 TATGGCTC-ACATGAGCTT
1 TATGGCTCTACATAAGCTT
1234741 CCTGTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.08
25 32 0.89
26 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (26 bp):
TATGGCTCTACATAAGCTTTCCATTA
Found at i:1237647 original size:40 final size:40
Alignment explanation
Indices: 1237592--1237672 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
1237582 TAGGTACTTT
1237592 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
1 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
1237632 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
1 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
1237672 A
1 A
1237673 ACAACATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.27, G:0.15, T:0.15
Consensus pattern (40 bp):
AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
Found at i:1238564 original size:51 final size:51
Alignment explanation
Indices: 1238487--1238860 Score: 574
Period size: 51 Copynumber: 7.4 Consensus size: 51
1238477 CGGATCACAT
1238487 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
1238538 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCCC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
1238588 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAACTAAAGCTACCAT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
1238639 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
1238690 TTATCACTTGTAACTTATCACTAATTAGATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
1238740 TTATCACTTGCCACTTCTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
1238791 TTATCACTTGTCACTTATCATTGATAACATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
1238841 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
1238861 GAAGTACTCA
Statistics
Matches: 295, Mismatches: 26, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
50 117 0.40
51 178 0.60
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:1238600 original size:101 final size:101
Alignment explanation
Indices: 1238487--1238860 Score: 570
Period size: 101 Copynumber: 3.7 Consensus size: 101
1238477 CGGATCACAT
1238487 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
* * *
1238552 TTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCCC
65 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
1238588 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAACTAAAGCTACCATTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
*
1238653 TTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
65 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
1238690 TTATCACTTGTAACTTATCACTAATTAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
*
1238755 TCTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
66 TATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
1238791 TTATCACTTGTCACTTATCATTGATAACATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
*
1238856 GATCA
66 TATCA
1238861 GAAGTACTCA
Statistics
Matches: 246, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
101 200 0.81
102 46 0.19
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (101 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
TATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:1238661 original size:152 final size:152
Alignment explanation
Indices: 1238484--1238860 Score: 594
Period size: 152 Copynumber: 2.5 Consensus size: 152
1238474 ACACGGATCA
1238484 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
1 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
* * * * * *
1238549 CACTTGTCACCGATCAGATAAGTGTAGCTAAGCTACCCCTTATCACTTGTCACTTGTCACTGATC
66 CACTTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
1238614 AGATAAGTGCAACTAAAGCTAC
131 AGATAAGTGCAACTAAAGCTAC
*
1238636 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGT
1 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
* * *
1238701 AACTTATCACTAATTAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
66 CACTTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
* *
1238766 AGATAAGTGTAGCTAAAGCTAC
131 AGATAAGTGCAACTAAAGCTAC
* * * *
1238788 CACTTATCACTTGTCACTTATCATTGATAACATAAGTGTAGCTAAA-CTACCACTTATCACTTGT
1 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
*
1238852 CACTGATCA
66 CACTTATCA
1238861 GAAGTACTCA
Statistics
Matches: 206, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
151 25 0.12
152 181 0.88
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (152 bp):
CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
CACTTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
AGATAAGTGCAACTAAAGCTAC
Found at i:1238956 original size:17 final size:17
Alignment explanation
Indices: 1238934--1238966 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1238924 TATTCTCAAT
1238934 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
1238951 TCATCATACAATATAT
1 TCATCATACAATATAT
1238967 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:1242092 original size:31 final size:31
Alignment explanation
Indices: 1242057--1242117 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1242047 TCAATAATAT
*
1242057 ATAAAGAATATAAAATTA-TTATTAAAATAAA
1 ATAAA-AATATAAAATAATTTATTAAAATAAA
*
1242088 ATAAAAATATTAAATAATTTATTAAAATAA
1 ATAAAAATATAAAATAATTTATTAAAATAA
1242118 TAAATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (31 bp):
ATAAAAATATAAAATAATTTATTAAAATAAA
Found at i:1253819 original size:20 final size:20
Alignment explanation
Indices: 1253794--1253836 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1253784 TAAATTTACA
*
1253794 AAAAAAAAACAAGCAAATAG
1 AAAAAAAAACAAGAAAATAG
* *
1253814 AAAAAAGAAGAAGAAAATAG
1 AAAAAAAAACAAGAAAATAG
1253834 AAA
1 AAA
1253837 GTGGAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAAAAAACAAGAAAATAG
Found at i:1255405 original size:83 final size:84
Alignment explanation
Indices: 1255309--1255524 Score: 344
Period size: 83 Copynumber: 2.6 Consensus size: 84
1255299 CATATGAAAT
* * *
1255309 ATTTAGTGTCAATTTACAATATAATATTAAAGATATTGAAGTTAATTACGTAGTTCGGAAAAGCA
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
1255374 TTCTA-GTTTGAAAAAACA
66 TTCTACGTTTGAAAAAACA
* *
1255392 ATTTAGTGTCAATTTATAATATCATATTAAAAACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
**
1255457 TTCTACGTTTGAAAAATTA
66 TTCTACGTTTGAAAAAACA
* *
1255476 ATTTAGTGTCAATTTATAATATAACATTAAAGACATCGAAGTTAGTTAC
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTAC
1255525 TTAGGGTGGG
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 65 0.54
84 56 0.46
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (84 bp):
ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
TTCTACGTTTGAAAAAACA
Found at i:1263214 original size:80 final size:79
Alignment explanation
Indices: 1263081--1263230 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 79
1263071 CCAAAAATTG
* * *
1263081 ATTTGATCACAGCCTTCTACTGCTTGCGTCCCAGTTAGCATTGATATTGGTACAACTTTTTGAGA
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAAC-TTTTGAGA
1263146 TTAAAAGTTGTGTTA
65 TTAAAAGTTGTGTTA
* *
1263161 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGTATTGATTTTGGTACAACTTTTGAGAT
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAACTTTTGAGAT
1263226 TAAAA
66 TAAAA
1263231 CAATGCTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 14 0.22
80 51 0.78
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (79 bp):
ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAACTTTTGAGAT
TAAAAGTTGTGTTA
Found at i:1268514 original size:21 final size:21
Alignment explanation
Indices: 1268485--1268525 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1268475 CGATTATGCA
1268485 AAAAAATTTAC-TGTTTTTTTT
1 AAAAAATTT-CTTGTTTTTTTT
*
1268506 AAAAGATTTCTTGTTTTTTT
1 AAAAAATTTCTTGTTTTTTT
1268526 CACTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (21 bp):
AAAAAATTTCTTGTTTTTTTT
Found at i:1280583 original size:14 final size:15
Alignment explanation
Indices: 1280564--1280592 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1280554 AGGTAGTTCT
1280564 TATATAAA-TAAAAA
1 TATATAAACTAAAAA
1280578 TATATAAACTAAAAA
1 TATATAAACTAAAAA
1280593 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TATATAAACTAAAAA
Found at i:1281942 original size:17 final size:17
Alignment explanation
Indices: 1281865--1281977 Score: 91
Period size: 17 Copynumber: 6.8 Consensus size: 17
1281855 CTTACTTTTT
1281865 AATAAAAATACTTTTGAG
1 AATAAAAATACTTTT-AG
*
1281883 AA-AAAAATA-TTACTA-
1 AATAAAAATACTT-TTAG
*
1281898 AAT-AAAATACTTTTAA
1 AATAAAAATACTTTTAG
1281914 AATTTTTAAAAATACTTTTAG
1 AA----TAAAAATACTTTTAG
1281935 AATAAAAATAC-TTT--
1 AATAAAAATACTTTTAG
1281949 --TAAAAATACTTTTAG
1 AATAAAAATACTTTTAG
1281964 AATAAAAATACTTT
1 AATAAAAATACTTT
1281978 GCAAAAATAT
Statistics
Matches: 78, Mismatches: 3, Indels: 29
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.12
13 3 0.04
15 10 0.13
16 10 0.13
17 29 0.37
18 2 0.03
20 1 0.01
21 14 0.18
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (17 bp):
AATAAAAATACTTTTAG
Found at i:1281952 original size:12 final size:12
Alignment explanation
Indices: 1281901--1281962 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
1281891 ATTACTAAAT
1281901 AAAATACTTTT-
1 AAAATACTTTTA
1281912 AAAAT--TTTTA
1 AAAATACTTTTA
1281922 AAAATACTTTTAGAATA
1 AAAATAC-TTT----TA
1281939 AAAATACTTTTA
1 AAAATACTTTTA
1281951 AAAATACTTTTA
1 AAAATACTTTTA
1281963 GAATAAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.09
10 5 0.12
11 5 0.12
12 14 0.33
13 3 0.07
16 3 0.07
17 9 0.21
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (12 bp):
AAAATACTTTTA
Found at i:1281953 original size:29 final size:29
Alignment explanation
Indices: 1281917--1281991 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
1281907 CTTTTAAAAT
1281917 TTTTAAAAATACTTTTAGAATAAAAATAC
1 TTTTAAAAATACTTTTAGAATAAAAATAC
1281946 TTTTAAAAATACTTTTAGAATAAAAATAC
1 TTTTAAAAATACTTTTAGAATAAAAATAC
* *
1281975 TTTGCAAAAATATTTTT
1 TTT-TAAAAATACTTTT
1281992 TCGACCAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 32 0.74
30 11 0.26
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (29 bp):
TTTTAAAAATACTTTTAGAATAAAAATAC
Found at i:1283701 original size:13 final size:13
Alignment explanation
Indices: 1283666--1283691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1283656 GTTTTAAGCA
1283666 ATTTAATTTTTTT
1 ATTTAATTTTTTT
1283679 ATTTAATTTTTTT
1 ATTTAATTTTTTT
1283692 TAATTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTAATTTTTTT
Found at i:1291566 original size:17 final size:16
Alignment explanation
Indices: 1291544--1291577 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1291534 CCGGAAATAA
1291544 TTTAATCTTAAAATGAT
1 TTTAAT-TTAAAATGAT
*
1291561 TTTAATTTAATATGAT
1 TTTAATTTAAAATGAT
1291577 T
1 T
1291578 ATCTCAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTAATTTAAAATGAT
Found at i:1295331 original size:8 final size:8
Alignment explanation
Indices: 1295320--1295351 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
1295310 TACCTTTACT
1295320 ATTTTAAA
1 ATTTTAAA
1295328 ATTTTAAA
1 ATTTTAAA
1295336 ATTTTAAA
1 ATTTTAAA
1295344 ATTTTAAA
1 ATTTTAAA
1295352 GGGCCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:1296575 original size:57 final size:56
Alignment explanation
Indices: 1296440--1296590 Score: 178
Period size: 57 Copynumber: 2.7 Consensus size: 56
1296430 ATTACGTAGG
* * * *
1296440 AATCAAATTGCTAAAAGATAATATCTCATAATAATATCGTATAATATCATATTAGG
1 AATCAAATTGCTAAAAGATAATATCACATAATAATATCGTATAACATCATAATAGA
* * * * * *
1296496 AATTAAATTGTTAAAAAAATAATATCCCATTATAATATCTTATAACATCCCATAAT-GA
1 AATCAAATTGCT-AAAAGATAATATCACATAATAATATCGTATAACAT--CATAATAGA
1296554 AATCAAATTGCTAAAAGATAATATCACATAATAATAT
1 AATCAAATTGCTAAAAGATAATATCACATAATAATAT
1296591 ATTTTATCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
56 10 0.13
57 52 0.67
58 11 0.14
59 5 0.06
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (56 bp):
AATCAAATTGCTAAAAGATAATATCACATAATAATATCGTATAACATCATAATAGA
Found at i:1297169 original size:23 final size:21
Alignment explanation
Indices: 1297090--1297169 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 21
1297080 TTCATTATTT
* *
1297090 TATTTTCATTCACTTTTAAAA
1 TATTTTAATTCAATTTTAAAA
* * ** * *
1297111 AATATTGCTTAAATTTTAAAG
1 TATTTTAATTCAATTTTAAAA
*
1297132 TATTTTAATTTAATTCTTAAAA
1 TATTTTAATTCAATT-TTAAAA
*
1297154 TATTTTTATATCAATT
1 TATTTTAAT-TCAATT
1297170 AAGTCCTTCC
Statistics
Matches: 42, Mismatches: 15, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
21 24 0.57
22 13 0.31
23 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTTTAATTCAATTTTAAAA
Found at i:1297765 original size:2 final size:2
Alignment explanation
Indices: 1297760--1297784 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1297750 TTTCCTTCCC
1297760 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
1297785 GTTCCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1298245 original size:17 final size:18
Alignment explanation
Indices: 1298211--1298248 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1298201 CTGGTTAGAG
* *
1298211 TTTTAGCCATCTTTTCTT
1 TTTTAACCATCTTCTCTT
1298229 TTTTAACCATC-TCTCTT
1 TTTTAACCATCTTCTCTT
1298246 TTT
1 TTT
1298249 GATTCTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.24, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAACCATCTTCTCTT
Found at i:1301732 original size:166 final size:165
Alignment explanation
Indices: 1301408--1301716 Score: 426
Period size: 166 Copynumber: 1.9 Consensus size: 165
1301398 CGTACGCTTC
*
1301408 TTTTATAAACGATTTTTACTATTAGTTTATAAGTGTCATTATGAAAACAAAGTTGTTTTAGTACT
1 TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
* * *
1301473 AATAGCCAGGGTAATGACAATGTTATAAATATTTAGGTATGTTTTACTGTGATTTATTTTATTAT
66 AATAGCCAGGGTAATAACAATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTATTAT
***
1301538 AGCATGTTTATTATAATGGGAAAAAATATTTGATTG
131 A-CATGGAGATTATAATGGGAAAAAATATTTGATTG
* * * *
1301574 TTTTATAAATGGTTTTTACTATTAGTTTATAAATGTTATTATGAAAGCAAAGTTGTTTTAGTACT
1 TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
* * *
1301639 AATAG-CAGGGTGATAACGATGATGTTA-AAATCTTTAGGTATATTTTATTATGATTTATTTTAT
66 AATAGCCAGGGTAATAAC-A--ATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTAT
1301702 TATA-ATTGGAGATTA
128 TATACA-TGGAGATTA
1301717 ATCATGGCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
165 11 0.09
166 72 0.58
167 36 0.29
168 6 0.05
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (165 bp):
TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
AATAGCCAGGGTAATAACAATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTATTAT
ACATGGAGATTATAATGGGAAAAAATATTTGATTG
Found at i:1303803 original size:38 final size:38
Alignment explanation
Indices: 1303752--1303829 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
1303742 CTTTCCGAAC
1303752 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
1 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
1303790 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
1 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
1303828 CC
1 CC
1303830 CTCATCCTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
Found at i:1306654 original size:28 final size:30
Alignment explanation
Indices: 1306622--1306685 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
1306612 TAGCAAAACT
1306622 TTAAAAAAAAAC-TT-AATAGCTT-AGTAAC
1 TTAAAAAAAAACTTTGAATAG-TTCAGTAAC
*
1306650 TTAAATAAAAACTTTTGAATAGTTCAGTAAC
1 TTAAAAAAAAAC-TTTGAATAGTTCAGTAAC
1306681 TTAAA
1 TTAAA
1306686 TGAAAACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 11 0.35
30 4 0.13
31 16 0.52
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (30 bp):
TTAAAAAAAAACTTTGAATAGTTCAGTAAC
Found at i:1318677 original size:14 final size:15
Alignment explanation
Indices: 1318649--1318678 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1318639 CACATATGAA
1318649 ACTTCTATGTATTTC
1 ACTTCTATGTATTTC
1318664 ACTTCTAT-TATTTC
1 ACTTCTATGTATTTC
1318678 A
1 A
1318679 TCCACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.53
Consensus pattern (15 bp):
ACTTCTATGTATTTC
Found at i:1319404 original size:22 final size:21
Alignment explanation
Indices: 1319379--1319419 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1319369 TGTTTACGAA
1319379 TATATAAATATTAATATAAAAT
1 TATATAAATATTAAT-TAAAAT
**
1319401 TATATATTTATTAATTAAA
1 TATATAAATATTAATTAAA
1319420 GGCTTAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATAAATATTAATTAAAAT
Found at i:1319440 original size:23 final size:23
Alignment explanation
Indices: 1319408--1319460 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1319398 AATTATATAT
* **
1319408 TTATTAATTAAAGGCTTAATTGA
1 TTATTTATTAAAAACTTAATTGA
*
1319431 TTATTTATTAAAAATTTAATTGA
1 TTATTTATTAAAAACTTAATTGA
*
1319454 TTTTTTA
1 TTATTTA
1319461 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (23 bp):
TTATTTATTAAAAACTTAATTGA
Found at i:1321500 original size:24 final size:24
Alignment explanation
Indices: 1321473--1321535 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
1321463 TGATTAATTG
1321473 CTCTTCGGAGCTACCCGTTAACTA
1 CTCTTCGGAGCTACCCGTTAACTA
* *
1321497 CTCTTCGGAGCTACCCGTTAATTG
1 CTCTTCGGAGCTACCCGTTAACTA
* *
1321521 CTATCCGGAGCTACC
1 CTCTTCGGAGCTACC
1321536 AGATATAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (24 bp):
CTCTTCGGAGCTACCCGTTAACTA
Found at i:1322853 original size:8 final size:8
Alignment explanation
Indices: 1322837--1322902 Score: 51
Period size: 9 Copynumber: 7.4 Consensus size: 8
1322827 TTAAGCTATT
1322837 ATATAATA
1 ATATAATA
*
1322845 ATATGATA
1 ATATAATA
*
1322853 AGTAGCAATA
1 A-TA-TAATA
1322863 ATATAAGTA
1 ATATAA-TA
1322872 ATAATAATA
1 AT-ATAATA
1322881 ATAATAATA
1 AT-ATAATA
1322890 ATAATAAATA
1 AT-AT-AATA
1322900 ATA
1 ATA
1322903 AAAGATGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
8 10 0.20
9 25 0.51
10 14 0.29
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (8 bp):
ATATAATA
Found at i:1322865 original size:3 final size:3
Alignment explanation
Indices: 1322859--1322903 Score: 65
Period size: 3 Copynumber: 14.7 Consensus size: 3
1322849 GATAAGTAGC
1322859 AAT AAT -AT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
1322904 AAGATGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Done.